Look for the online PDC session by Hervy Wilson on Federation and Windows Azure. Not sure on the link but a search should find it.
Essentially, this will be easier to do if you can migrate the apps to WIF for the agent rather than ADFS as the WIF agent doesn't require you to run the ADFS installer on the server (problematic for Azure). It is also generally easier to use an ADFS V2 server with WIF agents although you may be able to get WIF to accept tokens from an ADFS V1 server. ADFS V1 account partners can work with ADFS V2 resource partners and vice versa if needed.
Also, check out http://claimsid.codeplex.com and read the book. Good stuff there. Definitely time to start thinking about the V2 technology if you haven't already done so.